GgaINT0038637 @ galGal3
Intron Retention
Gene
ENSGALG00000003399 | SELE
Description
NA
Coordinates
chr8:5312248-5313061:+
Coord C1 exon
chr8:5312248-5312272
Coord A exon
chr8:5312273-5312674
Coord C2 exon
chr8:5312675-5313061
Length
402 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGG
5' ss Score
8.37
3' ss Seq
TTGCCATCTTTTCATTCTAGGGC
3' ss Score
10.42
Exon sequences
Seq C1 exon
GTGTCTGCAGAAAACTATTTGAGTG
Seq A exon
GTAAGGTTAGTGCGTTTAGTTTTGAGTTTGGAATTAAACAGATAGCTTTTGAATCTGACCTAATTAGCTTGAGGCTAGATTCACCTAGAAAAAAGCTGTAGCTGCAATTGCACTTTATCCTGATTGCCTGACAGAAGTGTAATTGGCTCCTATGATGTGATACGAATTCTGCAGATCTTTGTATGAGTGGACATAGTTGGACAGGCTGAAGTTGCTATACTTGATGGTGACTTGCCTGTTTGGAAGCTTGTTGGTTAATTACTTGTAAAATTATTGCCACTAAATTTTAATGCTGTTTCAGATATTGACAAATGTGCAGTGTTTATAAAGTTTGATGTATCCTTTTCTAGAGAAAGGGGGGGGAATGTCCAATACCAACTTTTTGCCATCTTTTCATTCTAG
Seq C2 exon
GGCTTACAATACTAGAGATGGTGAATTGTTGGACATACCATTATTCAGACACAAACATGACCTACAAAGAGGCAGAGTTGTGGTGCAAAAAGAGGTATACTAACATGGTTGCCATTCAAAACAAGGATGAAATCAACCATCTCAATGACTTTTTACCCTTCAATCCGAGTTACTACTGGATTGGAATCAGAAAAATTAATGGTACATGGACCTGGGTTGGAACAAACAAGGAGCTGACAAAAGAAGCAGAAAACTGGGCTTCAGGTGAACCAAATGGCAAAGGGAACAATGAGGACTGTGTTGAAATCTACATCAAAAGAGGGAAGGATGACGGCAAATGGAATGATGAGAAGTGTGAGAAGAAGAAGGTTGCCTTGTGCTATACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003399:ENSGALT00000005376:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.054
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0005916=Lectin_C=WD(100=86.2),PF079748=EGF_2=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTCTGCAGAAAACTATTTGAGTG
R:
CCGTCATCCTTCCCTCTTTTGA
Band lengths:
358-760
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]